Supplementary Figure 10: FIE ChIP in wild type or BPC+ZnF KD plants.
From: Cis and trans determinants of epigenetic silencing by Polycomb repressive complex 2 in Arabidopsis
(a) Principal component analysis (PCA) of RPM-normalized ChIP and input DNA. (b) Comparison of FIE ChIPseq reads from wild-type (WT) and BPC+ZnF KD plants. Shown are ChIPseq reads mapping to the WT-FIE peak regions. Regions with significantly (P-value < 0.01 and 2-fold change) increased and decreased read density in BPC+ ZnF KD are indicated by blue and red color, respectively. (c) Heatmap of RPM normalized read counts of the FIE ChIPseq at the targets tested by qRT-PCR in Figure 5. (d) Percent overlap table (by row) of 170 candidate PREs with significant (Q < 10-10) ChIPseq peaks for FIE in the wild type background (from Figure 5) as well as FIE and H3K27me3 (from Figure 4). Shading highlights strength of overlap. (e) Piechart of the overlap between the 170 computationally defined candidate PREs we identified from the vegetative phase of development (supplementary Fig. 1) and significant (Q < 10-10) FIE, TF (BPC1/AZF1) and H3K27me3 peaks identified by ChIPseq in 30-h-old plants.
